# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1g0uG 252 1.27e-01 d.153.1.4 41952 1rypA 243 1.38e-01 1pmaA d.153.1.4 41932 2ap1A 327 2.37e-01 1wp5A 323 1.78e+00 2a19A 175 1.90e+00 2ahqA 76 2.14e+00 1f1sA 814 2.54e+00 a.102.3.2,b.1.18.2,b.24.1.1,b.30.5.2 64928,64929,64930,64931 1fseA 74 2.59e+00 1fseA a.4.6.2 60000 1wzvA 155 2.63e+00 1xqaA 113 3.55e+00 1yrvA 169 4.45e+00 1o04A 500 5.52e+00 c.82.1.1 86508 2db9A 149 5.80e+00 1qhbA 596 5.85e+00 1qhbA a.111.1.2 19055 1u08A 386 6.44e+00 c.67.1.1 107543 1q2hA 69 7.03e+00 a.34.4.1 104498 1ufiA 64 7.25e+00 a.30.4.1 99336 1xawA 140 7.29e+00 1u7kA 131 8.07e+00 1z8uA 102 8.08e+00 1fzqA 181 8.65e+00 1hurA c.37.1.8 32060 1wxcB 134 8.94e+00 1diwA 441 1.06e+01 1a8d b.29.1.6,b.42.4.2 24264,25609 1b7yA 350 1.07e+01 1pysA d.104.1.1 40776 1hp0A 339 1.11e+01 c.70.1.1 65900 1brwA 433 1.18e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1d0hA 469 1.21e+01 1a8d b.29.1.6,b.42.4.2 24265,25610 1ag8A 499 1.21e+01 1bpwA c.82.1.1 35341 1w0bA 102 1.23e+01 a.7.11.1 108985 1fgyA 127 1.24e+01 1faoA b.55.1.1 26976 1z5yE 149 1.28e+01 2b20A 403 1.30e+01 1cuk 203 1.30e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 2g0uA 92 1.38e+01 1kxoA 184 1.41e+01 b.60.1.1 84475 1hozA 339 1.41e+01 c.70.1.1 65898 3proD 166 1.46e+01 3proC d.52.1.1,d.52.1.1 38814,38815 1q02A 52 1.50e+01 a.5.2.1 95490 2aegA 268 1.51e+01 3proC 166 1.51e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1hynP 379 1.53e+01 1hynP d.112.1.2 61408 1ahr 146 1.53e+01 1cll a.39.1.5 17287 1dzkA 157 1.54e+01 1obpA b.60.1.1 27096 2ajrA 331 1.54e+01 1a8d 452 1.56e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1osa 148 1.61e+01 1cll a.39.1.5 17300 1v0wA 506 1.61e+01 d.136.1.2,d.136.1.2 108220,108221 1yts 278 1.64e+01 1ytw c.45.1.2 32690 1q1lA 401 1.74e+01 d.258.1.1 95591 1xttA 216 1.78e+01 1jsdA 319 1.82e+01 b.19.1.2 63258 1ytw 306 1.82e+01 1ytw c.45.1.2 32689 1ytn 306 1.83e+01 1ytw c.45.1.2 32688 1a3yA 149 1.83e+01 1obpA b.60.1.1 27110 3cln 148 1.90e+01 1cll a.39.1.5 17286 1tn4 159 1.91e+01 1ncx a.39.1.5 17248 1zvkA 358 1.92e+01 4bcl 366 1.93e+01 4bcl b.75.1.1 27968 1wgxA 73 1.94e+01 1yx1A 264 2.00e+01 1lyvA 306 2.04e+01 c.45.1.2 74348 1cll 148 2.24e+01 1cll a.39.1.5 17263 1z5bA 469 2.29e+01 2gl5A 410 2.41e+01 1a8y 367 2.42e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1bbpA 173 2.49e+01 1bbpA b.60.1.1 27147 1innA 166 2.51e+01 1j98A d.185.1.2 62608 1vjeA 166 2.53e+01 d.185.1.2 100807 1a3s 160 2.59e+01 1u9aA d.20.1.1 38335 1xzzA 246 2.60e+01 1zg2A 107 2.70e+01 1eqfA 280 2.72e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 2occE 109 2.74e+01 2occE a.118.11.1 19224 1gqeA 365 2.75e+01 e.38.1.1 70351 1xkpA 246 2.77e+01 1mhlC 466 2.77e+01 1mhlC 1y01A 102 2.80e+01 1v54E 109 2.82e+01 a.118.11.1 100326 1d2vC 466 2.82e+01 1mhlC 1emwA 88 2.83e+01 1emwA d.27.1.1 38448 1yptA 305 2.86e+01 1ytw c.45.1.2 32686 1n91A 108 2.90e+01 d.206.1.1 80326 1cxpC 466 2.90e+01 1mhlC 1vcvA 226 2.91e+01 1gt91 357 3.05e+01 1v64A 108 3.12e+01 a.21.1.1 108392 1h2kA 349 3.14e+01 b.82.2.6 76572 1u9aA 160 3.22e+01 1u9aA d.20.1.1 38333 1hfoA 113 3.23e+01 d.80.1.3 61006 1tiiD 99 3.30e+01 1tiiD b.40.2.1 24965 1q15A 503 3.35e+01 c.26.2.1,d.153.1.1 95538,95539 1wqgA 185 3.38e+01 1qb5D 99 3.44e+01 b.40.2.1 88357 1ej8A 140 3.47e+01 1qupA b.1.8.1 22300 2c43A 323 3.50e+01 1t1gA 364 3.52e+01 c.41.1.2 106246 1z52A 470 3.60e+01 1j98A 157 3.67e+01 1j98A d.185.1.2 62755 1jy2O 56 3.67e+01 h.1.8.1 67441 1wpaA 114 3.83e+01 1lkkA 105 3.88e+01 1lckA d.93.1.1 40412 1pysA 350 3.88e+01 1pysA d.104.1.1 40775 1jf4A 147 3.92e+01 a.1.1.2 71643 1uzbA 516 3.95e+01 c.82.1.1 100220 1q59A 172 4.05e+01 f.1.4.1 95881 2gupA 292 4.10e+01 1hjp 203 4.16e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16274,17947,25266 1jy3O 56 4.24e+01 h.1.8.1 67447 1gx5A 536 4.25e+01 e.8.1.4 70682 2bjkA 516 4.28e+01 1z02A 446 4.30e+01 2aobA 99 4.43e+01 2bydA 323 4.44e+01 1g4yR 148 4.53e+01 1cll a.39.1.5 60252 1ggzA 148 4.54e+01 a.39.1.5 70176 2ac3A 316 4.55e+01 1szoA 257 4.60e+01 c.14.1.3 106164 1g9uA 454 4.61e+01 c.10.2.6 65172 1jl5A 454 4.63e+01 c.10.2.6 66830 1f0iA 504 4.63e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1o8uA 257 4.64e+01 c.14.1.3 81194 1fzyA 149 4.83e+01 d.20.1.1 65072 1preB 470 4.85e+01 1preA d.169.1.2,f.8.1.1 42438,43825 1nepA 130 4.87e+01 b.1.18.7 80440 1ynuA 473 4.89e+01 1eyvA 156 4.93e+01 1eyvA a.79.1.1 18446 2fi9A 128 4.93e+01 1kq4A 232 4.94e+01 d.207.1.1 68791 1c2pA 576 4.96e+01 1quvA e.8.1.4 43117 2b0tA 738 5.01e+01 1mzeA 351 5.03e+01 b.82.2.6 79694 2f3yA 148 5.07e+01 1m7yA 435 5.16e+01 c.67.1.4 78761 1ywlA 96 5.24e+01 1jruA 89 5.32e+01 1jruA d.15.1.2 63257 1q1vA 70 5.33e+01 a.159.4.1 104479 1rp0A 284 5.38e+01 1fvrA 327 5.39e+01 d.144.1.7 60047 1qipA 183 5.42e+01 1qipA d.32.1.1 38470 1efnA 59 5.43e+01 1bbzA b.34.2.1 24465 1pq4A 291 5.49e+01 c.92.2.2 94995 1shfA 59 5.54e+01 1bbzA b.34.2.1 24462 1lcjA 109 5.63e+01 1qadA d.93.1.1 40414 1tf1A 198 5.65e+01 d.110.2.2 106826 1bjwA 382 5.72e+01 1bjwA c.67.1.1 34349 1um8A 376 5.81e+01 c.37.1.20 99580 1rpmA 278 5.90e+01 2shpA c.45.1.2 32679 1preA 470 5.91e+01 1preA d.169.1.2,f.8.1.1 42437,43824 1up8A 598 6.01e+01 a.111.1.2 99710 1ak8 76 6.03e+01 1cll a.39.1.5 17281 1d1dA 262 6.06e+01 1d1dA a.28.3.1,a.73.1.1 16958,18335 1ah4 315 6.12e+01 1frb c.1.7.1 28684 1nrjA 158 6.14e+01 d.110.4.4 86124 2gokA 429 6.17e+01 1wp1A 474 6.31e+01 1xi7A 61 6.31e+01 1td6A 306 6.39e+01 1s0yB 71 6.40e+01 d.80.1.1 98315 1oj4A 283 6.41e+01 d.14.1.5,d.58.26.5 93083,93084 1zmtA 254 6.43e+01 1sseB 86 6.61e+01 1gd8A 118 6.61e+01 d.188.1.1 60445 1pmmA 466 6.73e+01 c.67.1.6 94901 1pwxA 254 6.80e+01 c.2.1.2 95262 1up7A 417 6.83e+01 1zd9A 188 6.87e+01 1ztpA 251 6.92e+01 1msk 331 6.96e+01 1msk d.173.1.1 42495 1yirA 408 7.12e+01 1ufoA 238 7.17e+01 c.69.1.27 99344 1vmeA 410 7.19e+01 c.23.5.1,d.157.1.3 108893,108894 1o9iA 266 7.30e+01 a.25.1.3 92671 1iu9A 111 7.31e+01 c.78.2.1 90694 1vkkA 154 7.32e+01 d.109.1.2 108669 1jkvA 266 7.36e+01 a.25.1.3 71719 1vcbC 160 7.40e+01 1vcbC b.3.3.1 22535 1b8gA 429 7.46e+01 1b8gA c.67.1.4 34499 1aotF 106 7.48e+01 1lckA d.93.1.1 40458 1lm8V 160 7.60e+01 b.3.3.1 74035 1i42A 89 7.61e+01 1jruA d.15.1.2 61651 1wf9A 107 7.62e+01 2f2hA 773 7.62e+01 2f4mA 295 7.67e+01 1jqeA 292 7.67e+01 c.66.1.19 71789 1q4gA 553 7.69e+01 a.93.1.2,g.3.11.1 95789,95790 3bdpA 580 7.72e+01 1xwl c.55.3.5,e.8.1.1 33711,43004 1xwl 580 7.73e+01 1xwl c.55.3.5,e.8.1.1 33708,43001 1nxcA 478 7.75e+01 a.102.2.1 92293 2bdpA 580 7.75e+01 1xwl c.55.3.5,e.8.1.1 33709,43002 1xsjA 778 7.79e+01 1sxjE 354 7.80e+01 a.80.1.1,c.37.1.20 106089,106090 1w7lA 422 7.84e+01 c.67.1.1 109226 2av5A 120 8.03e+01 1cqeA 580 8.05e+01 1cqeA a.93.1.2,g.3.11.1 18703,44246 1bh5A 183 8.06e+01 1qipA d.32.1.1 38476 1l3sA 580 8.07e+01 c.55.3.5,e.8.1.1 84521,84522 2ddrA 306 8.09e+01 2grrA 161 8.09e+01 1nk4A 580 8.09e+01 c.55.3.5,e.8.1.1 91923,91924 1dd5A 185 8.10e+01 1dd5A d.67.3.1 39564 1ni9A 338 8.11e+01 e.7.1.2 85739 1d9uA 154 8.12e+01 1am7A d.2.1.4 59111 1zhxA 438 8.12e+01 1mwwA 128 8.15e+01 d.80.1.4 91483 2fjlA 150 8.15e+01 1b6cB 342 8.21e+01 1b6cB d.144.1.7 41673 1ta0A 197 8.31e+01 c.108.1.16 106729 2aotA 292 8.31e+01 1u67A 600 8.32e+01 a.93.1.2,g.3.11.1 107697,107698 1wovA 250 8.34e+01 1zyeA 220 8.44e+01 1k7yA 577 8.45e+01 a.46.1.1,c.23.6.1,d.173.1.1 68272,68273,68274 1zpuA 534 8.46e+01 1exrA 148 8.50e+01 1cll a.39.1.5 17299 1azgB 67 8.56e+01 1bbzA b.34.2.1 24471 1ncx 162 8.66e+01 1ncx a.39.1.5 17222 1h6dA 433 8.78e+01 c.2.1.3,d.81.1.5 65656,65657 2bw3A 534 8.81e+01 1xhlA 297 8.83e+01 c.2.1.2 109591 1qupA 222 8.91e+01 1qupA b.1.8.1,d.58.17.1 22301,39352 1a93A 34 8.93e+01 1a93A h.1.3.1 45543